Table 2. Characteristics of top 56 candidate loci identified by HELP.
| Position | IUGR | Control | Difference | P | CpG | CGc | phC | Rep | Loc | Gene(s) | RefSeq |
| chr2:235526053-235526128 | 2.06 | 2.66 | −0.61 | 0.4 | YES | YES | YES | PRO | SH3BP4 | NM_014521 | |
| chrX:66138356-66139206 | −0.78 | −1.29 | 0.51 | 0.8 | no | no | no | RT | |||
| chr15:45018938-45019873 | −0.62 | −1.11 | 0.48 | 0.9 | no | no | YES | ||||
| chr6:106879977-106880120 | 2.56 | 3.34 | −0.78 | 1.1 | YES | YES | YES | PRO | ATG5 | NM_004849 | |
| chr18:18624869-18626554 | −0.72 | −1.28 | 0.55 | 1.3 | no | no | YES | ||||
| chr2:176841167-176842343 | −0.16 | −0.48 | 0.33 | 1.5 | no | YES | no | LT | PRO | MTX2 | NM_006554 |
| chr6:113687585-113688546 | −1.81 | −2.61 | 0.80 | 1.5 | no | no | YES | ||||
| chr11:77123865-77124724 | −0.60 | −1.33 | 0.73 | 1.8 | YES | no | YES | GB | RSF1 | NM_016578 | |
| chrX:70857596-70857847 | 0.51 | 1.28 | −0.77 | 2.0 | no | no | no | ||||
| chr19:2616301-2616955 | −0.86 | −1.18 | 0.32 | 2.2 | no | no | no | RT | GB | GNG7 | NM_052847 |
| chr12:123573299-123573372 | 1.80 | 2.79 | −1.00 | 2.2 | no | no | no | PRO | NCOR2 | NM_006312 | |
| chr4:102487593-102487694 | 1.59 | 2.55 | −0.97 | 2.4 | YES | YES | YES | PRO | PPP3CA | NM_000944 | |
| chr11:13612440-13613698 | −1.01 | −1.79 | 0.78 | 2.5 | no | no | no | ||||
| chr20:39422191-39423123 | −0.42 | −0.94 | 0.52 | 2.7 | no | no | YES | GB | LPIN3 EMILIN3 | NM_022896 NM_052846 | |
| chrX:48943071-48943319 | 1.94 | 2.72 | −0.78 | 3.0 | YES | YES | YES | PRO | SYP | NM_003179 | |
| chr12:105961981-105963288 | −1.44 | −2.49 | 1.06 | 3.1 | no | no | no | RT | PRO | CRY1 | NM_004075 |
| chr11:76172201-76172653 | 2.48 | 3.16 | −0.68 | 3.2 | YES | YES | YES | PRO | TSKU | NM_015516 | |
| chr8:318760-319070 | −1.07 | −0.60 | −0.47 | 3.4 | no | no | no | ||||
| chr8:25575968-25577680 | −1.53 | −2.41 | 0.88 | 3.4 | no | no | YES | ||||
| chrX:99552722-99552801 | 3.09 | 3.62 | −0.52 | 3.7 | YES | YES | YES | PRO | PCDH19 | NM_020766 | |
| chr22:45949018-45950112 | −1.23 | −1.87 | 0.65 | 3.7 | no | YES | no | ||||
| chr11:99814353-99814807 | −0.48 | 0.36 | −0.83 | 3.8 | no | no | no | ||||
| chr15:91226882-91227081 | 2.40 | 3.34 | −0.93 | 3.8 | no | YES | YES | ||||
| chr3:9809841-9809915 | 1.49 | 2.24 | −0.74 | 3.8 | YES | YES | YES | PRO2 | TADA3L ARPC4 | NM_006354 NM_005718 | |
| chr12:1774845-1774939 | 1.72 | 2.45 | −0.73 | 4.2 | no | no | no | GB | CACNA2D4 | NM_172364 | |
| chr15:88120371-88120587 | 1.28 | 2.08 | −0.79 | 4.4 | YES | YES | YES | PRO | MESP2 | NM_001039958 | |
| chr9:78132928-78133704 | −0.91 | −1.56 | 0.65 | 5.2 | no | no | YES | ||||
| chr9:33740402-33740551 | 1.61 | 2.41 | −0.80 | 5.2 | YES | YES | no | PRO | PRSS3 | NM_007343 | |
| chr16:4746813-4747596 | −1.50 | −1.85 | 0.35 | 5.2 | no | no | no | RT | GB | ZNF500 | NM_021646 |
| chr3:129693359-129693420 | 1.66 | 2.31 | −0.65 | 5.2 | YES | YES | no | PRO | GATA2 | NM_032638 | |
| chr2:206657793-206657892 | 2.47 | 3.43 | −0.96 | 5.4 | no | YES | YES | PRO | INO80D | NM_017759 | |
| chr6:21543836-21545402 | −1.61 | −2.10 | 0.49 | 5.6 | no | no | no | RT | |||
| chr22:16347210-16348259 | −1.26 | −1.62 | 0.36 | 5.9 | no | no | no | RT | GB | CECR2 | NM_031413 |
| chr8:94370466-94372334 | −1.26 | −2.09 | 0.84 | 6.1 | no | no | no | ||||
| chr20:22581679-22582432 | −1.09 | −1.76 | 0.67 | 6.1 | no | no | YES | ||||
| chr21:25927844-25929694 | −1.13 | −1.77 | 0.64 | 6.3 | no | no | YES | RT/LT | |||
| chr12:105841213-105843079 | −1.42 | −1.71 | 0.29 | 6.4 | no | no | no | RT | |||
| chrX:39752669-39752723 | 1.04 | 1.99 | −0.95 | 6.5 | YES | YES | YES | ||||
| chr16:87294955-87295022 | 1.03 | 1.63 | −0.60 | 6.7 | no | YES | no | GB | RNF166 | NM_178841 | |
| chr22:17514809-17516325 | 2.52 | 3.26 | −0.74 | 7.0 | YES | YES | no | PRO | GSC2 | NM_005315 | |
| chr15:78244066-78244975 | −1.04 | −1.49 | 0.45 | 7.1 | no | no | no | GB | FAH | NM_000137 | |
| chr10:101825755-101826964 | −1.72 | −2.11 | 0.39 | 7.2 | no | no | YES | PRO | CPN1 | NM_001308 | |
| chr16:29563652-29563719 | 2.38 | 3.22 | −0.83 | 7.3 | no | no | no | RT | |||
| chr5:132564040-132565611 | −1.89 | −2.55 | 0.66 | 7.5 | no | no | YES | PRO | FSTL4 | NM_015082 | |
| chr18:40597598-40598729 | −2.17 | −2.86 | 0.69 | 7.6 | no | no | YES | GB | SETBP1 | NM_015559 | |
| chr17:17019265-17021036 | −1.34 | −1.94 | 0.60 | 7.9 | no | no | YES | GB | MPRIP | NM_015134 | |
| chr4:101159747-101160275 | −1.72 | −2.38 | 0.66 | 8.0 | no | no | no | RT | |||
| chr11:120258272-120258456 | 2.13 | 2.91 | −0.78 | 8.1 | no | no | YES | PRO | GRIK4 | NM_014619 | |
| chr9:19033554-19034579 | −0.19 | −0.84 | 0.65 | 8.5 | no | no | no | RT | |||
| chr8:59144552-59145204 | −1.10 | −1.61 | 0.52 | 8.6 | no | no | YES | GB | FAM110B | NM_147189 | |
| chr6:41861921-41862019 | 0.99 | 1.56 | −0.57 | 8.7 | YES | YES | YES | GB | PRICKLE4 | NM_013397 | |
| chr15:61088671-61090467 | −0.44 | −1.03 | 0.59 | 8.8 | no | no | no | ||||
| chr10:71811777-71811840 | 1.86 | 2.76 | −0.90 | 8.8 | YES | YES | no | PRO | LRRC20 | NM_018205 | |
| chr12:109990645-109990725 | 1.32 | 2.32 | −1.00 | 9.1 | no | no | YES | PRO | CUX2 | NM_015267 | |
| chr3:124611357-124611643 | 3.63 | 4.23 | −0.61 | 9.4 | no | no | YES | PRO | ADCY5 | NM_183357 | |
| chr10:92344854-92345619 | −1.70 | −2.71 | 1.01 | 9.7 | no | no | no |
All positions correspond to coordinates in the human genome, hg18 March 2006 UCSC Genome Browser; IUGR and Control data given as group averages of log2(HpaII/MspI); difference is IUGR minus Control; P-values are all x10−6; CpG, overlap with CpG islands; CGc overlap CG clusters; phC overlap with mammalian or vertebrate phastCons conserved elements; Rep overlap with repetitive elements (RT for retrotransposable elements including LINEs and SINEs, LT for long terminal repeats); Loc overlap with promoters (PRO), bidirectional promoters (PRO2), or gene bodies (GB) of RefSeq genes; Gene names and corresponding RefSeq identifiers are also shown.